Variant report

Variant	rs11842402
Chromosome Location	chr13:49114271-49114272
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:49109335..49111228-chr13:49113801..49116613,2	MCF-7	breast:
2	chr13:49106673..49108535-chr13:49114144..49118573,5	MCF-7	breast:
3	chr13:49105312..49106900-chr13:49113736..49116224,2	MCF-7	breast:
4	chr13:49113085..49114630-chr13:49116071..49118855,2	MCF-7	breast:
5	chr13:49113319..49115711-chr13:49122578..49124381,2	K562	blood:

Variant related genes	Relation type
ENSG00000136161	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10076	0.95[AMR][1000 genomes]
rs10467381	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11840819	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11842662	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13378245	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17071917	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17071960	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs174854	0.95[AMR][1000 genomes]
rs198565	0.95[AMR][1000 genomes]
rs198573	0.95[AMR][1000 genomes]
rs198581	0.90[AMR][1000 genomes]
rs198583	0.95[AMR][1000 genomes]
rs198587	0.95[AMR][1000 genomes]
rs2984828	0.95[AMR][1000 genomes]
rs3020646	0.95[AMR][1000 genomes]
rs7322110	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7332631	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7984270	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9316384	0.82[AMR][1000 genomes]
rs9316387	0.82[AMR][1000 genomes]
rs9316390	0.83[AMR][1000 genomes]
rs9316391	0.83[AMR][1000 genomes]
rs9316392	0.95[AMR][1000 genomes]
rs9316403	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332025	0.83[AMR][1000 genomes]
rs9332036	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332050	0.95[AMR][1000 genomes]
rs9332053	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332066	0.95[AMR][1000 genomes]
rs9591167	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9591170	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9591171	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9591174	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9591175	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9595913	0.95[AMR][1000 genomes]
rs9595914	0.82[AMR][1000 genomes]
rs9595917	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9595930	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9595936	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832602	chr13:49003159-49167781	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1041275	chr13:49045566-49242357	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv541769	chr13:49045566-49242357	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv832604	chr13:49061081-49281807	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1049117	chr13:49089476-49928945	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:49107800-49116200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr13:49107800-49116200	Weak transcription	Left Ventricle	heart
3	chr13:49107800-49116200	Weak transcription	Right Atrium	heart
4	chr13:49107800-49116200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr13:49107800-49116400	Weak transcription	Lung	lung
6	chr13:49107800-49116800	Weak transcription	Pancreas	Pancrea
7	chr13:49108000-49116600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr13:49108400-49116400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr13:49110800-49116200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr13:49110800-49116400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr13:49111200-49116200	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr13:49111200-49116600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr13:49111400-49116200	Weak transcription	Primary monocytes fromperipheralblood	blood
14	chr13:49112400-49115800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr13:49114000-49116600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr13:49114200-49116200	Weak transcription	Psoas Muscle	Psoas
17	chr13:49114200-49116200	Weak transcription	Right Ventricle	heart
18	chr13:49114200-49116400	Weak transcription	Adipose Nuclei	Adipose
19	chr13:49114200-49116400	Weak transcription	Esophagus	oesophagus

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